# User:Tara K. Luckau/Notebook/Team ConGen/2012/01/21

Tara's Lab Notebook Main project page
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## How to FSTAT for FST values and significance

• spent some time compiling the useful parts of F-statistics output from FSTAT ... here's what I figured out ...
• FSTAT v 2.9.3.2

### Formatting Data

#### MS Excel

• first row can be anything (title your Genepop run, for example)
• second row is marker names, separated by commas
• third row is lthe word "POP" (or "Pop" or "pop"), to separate populations
• fourth row is data
• start with sample name - can use any character, including white space
• comma
• genotypes separated by white space

#### MS Word

• copy data from Excel, Paste Special into Word
• as Unformatted Text
• Save As ...
• Plain Text (.txt)
• File Conversion: Latin-US (DOS), CR/LF

### Genepop on the Web

#### Option 1: Hardy Weinberg Exact Tests

##### Suboption 3: Probability Test
• will output Hardy-Weinberg chi-square test, along with significance
grouped by marker
grouped by population
overall

#### Option 5: Allele Frequencies, etc.

##### Suboption 1: Genotypic matrices, number obs/exp homozygotes and heterozygotes, allele frequencies, etc
• will output genotype matrix (how often one allele occurs with another), genotype frequences, expected and observed number of homozygotes and heterozygotes, allele frequences
• calculate He and Ho
$H_e = \tfrac{\mbox{expected number of heterzygotes}}{\mbox{number of samples}}\mbox{ . . . }H_o = \tfrac{\mbox{obvserved number of heterzygotes}}{\mbox{number of samples}}$